miRNA display CGI


Results 1 - 20 of 29 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
10582 5' -55.5 NC_002687.1 + 13618 0.67 0.9753
Target:  5'- -aCGCACACGUUucccguugugucGAUuucgcuaacacuUACCCUGAACAc -3'
miRNA:   3'- caGCGUGUGCGA------------CUG------------GUGGGACUUGU- -5'
10582 5' -55.5 NC_002687.1 + 21843 0.71 0.864335
Target:  5'- -gCGCACACGCUGGCgGCgggggaaCCUGugGACAu -3'
miRNA:   3'- caGCGUGUGCGACUGgUG-------GGAC--UUGU- -5'
10582 5' -55.5 NC_002687.1 + 39371 0.68 0.940768
Target:  5'- --aGCAUcaGCGCUGuuuuuccGCCGCCCUGGAa- -3'
miRNA:   3'- cagCGUG--UGCGAC-------UGGUGGGACUUgu -5'
10582 5' -55.5 NC_002687.1 + 58495 0.69 0.920064
Target:  5'- gGUCGCGCguauuguacagccgGCGCgcucGGCCGCCCUcGACu -3'
miRNA:   3'- -CAGCGUG--------------UGCGa---CUGGUGGGAcUUGu -5'
10582 5' -55.5 NC_002687.1 + 69975 0.7 0.879094
Target:  5'- uGUCGUACAugcCGCUGGCgGCUCUG-GCGg -3'
miRNA:   3'- -CAGCGUGU---GCGACUGgUGGGACuUGU- -5'
10582 5' -55.5 NC_002687.1 + 77637 0.68 0.952047
Target:  5'- uUCGCGCACGUcuuguUGACCAaugacgacgacgaCUUGAGCGc -3'
miRNA:   3'- cAGCGUGUGCG-----ACUGGUg------------GGACUUGU- -5'
10582 5' -55.5 NC_002687.1 + 80458 0.66 0.981858
Target:  5'- -aCGCGCACG-UGACCACCggCUcGAugAa -3'
miRNA:   3'- caGCGUGUGCgACUGGUGG--GA-CUugU- -5'
10582 5' -55.5 NC_002687.1 + 85494 0.69 0.921672
Target:  5'- --gGUGCACGC-GGCCuCCCUGGACc -3'
miRNA:   3'- cagCGUGUGCGaCUGGuGGGACUUGu -5'
10582 5' -55.5 NC_002687.1 + 107925 0.66 0.983723
Target:  5'- uUCGCaacGCACGCcaccgagaGCCACCUUGAugGg -3'
miRNA:   3'- cAGCG---UGUGCGac------UGGUGGGACUugU- -5'
10582 5' -55.5 NC_002687.1 + 140717 0.72 0.818495
Target:  5'- -gCGC-CAUGCUGGCCGCCaaGGACu -3'
miRNA:   3'- caGCGuGUGCGACUGGUGGgaCUUGu -5'
10582 5' -55.5 NC_002687.1 + 142409 0.67 0.960778
Target:  5'- aUUGC-CACGCUGA--GCCCUGuACAa -3'
miRNA:   3'- cAGCGuGUGCGACUggUGGGACuUGU- -5'
10582 5' -55.5 NC_002687.1 + 143024 0.66 0.985439
Target:  5'- uGUUGCGCACGUcGAUgaaGCCCUcggGGGCAu -3'
miRNA:   3'- -CAGCGUGUGCGaCUGg--UGGGA---CUUGU- -5'
10582 5' -55.5 NC_002687.1 + 155747 0.68 0.945553
Target:  5'- aUCGCGCGCGCgucUGGCgaACCCcuauaaaaaUGAACAc -3'
miRNA:   3'- cAGCGUGUGCG---ACUGg-UGGG---------ACUUGU- -5'
10582 5' -55.5 NC_002687.1 + 168789 0.67 0.964068
Target:  5'- gGUCGCGCGCGCaaACgAUCCcgGGACGg -3'
miRNA:   3'- -CAGCGUGUGCGacUGgUGGGa-CUUGU- -5'
10582 5' -55.5 NC_002687.1 + 177154 0.74 0.729277
Target:  5'- --aGCucCACGCUGAUCGCCCUGucauACAc -3'
miRNA:   3'- cagCGu-GUGCGACUGGUGGGACu---UGU- -5'
10582 5' -55.5 NC_002687.1 + 182436 0.69 0.926887
Target:  5'- --aGCGgGCGC-GACCGCCgaGGACAu -3'
miRNA:   3'- cagCGUgUGCGaCUGGUGGgaCUUGU- -5'
10582 5' -55.5 NC_002687.1 + 204535 0.68 0.952047
Target:  5'- -cCGCcccCGCGCUGAUaugcgacccgaggGCCCUGAACAu -3'
miRNA:   3'- caGCGu--GUGCGACUGg------------UGGGACUUGU- -5'
10582 5' -55.5 NC_002687.1 + 206385 0.69 0.936658
Target:  5'- -aCGUAUACGagccaUGACUACCCUucGGACAc -3'
miRNA:   3'- caGCGUGUGCg----ACUGGUGGGA--CUUGU- -5'
10582 5' -55.5 NC_002687.1 + 220079 0.66 0.983723
Target:  5'- -cCGUaACGCGCUGACCuCCgUGGcCAa -3'
miRNA:   3'- caGCG-UGUGCGACUGGuGGgACUuGU- -5'
10582 5' -55.5 NC_002687.1 + 235456 0.72 0.826684
Target:  5'- uUCGCGCGCGCUucuucGGCCGCCUcccucucuaGAACAa -3'
miRNA:   3'- cAGCGUGUGCGA-----CUGGUGGGa--------CUUGU- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.